Multiple sequence alignment - TraesCS1A01G410800

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS1A01G410800 chr1A 100.000 3637 0 0 1 3637 571790889 571787253 0.000000e+00 6717.0
1 TraesCS1A01G410800 chr1A 90.365 768 43 17 1 744 455015765 455016525 0.000000e+00 979.0
2 TraesCS1A01G410800 chr1A 83.528 686 86 15 80 746 20410848 20411525 1.860000e-172 616.0
3 TraesCS1A01G410800 chr1A 82.215 641 72 20 3017 3631 571738334 571737710 6.960000e-142 514.0
4 TraesCS1A01G410800 chr1A 80.816 490 58 15 3136 3616 571725448 571724986 5.780000e-93 351.0
5 TraesCS1A01G410800 chr1D 89.331 1734 114 27 1936 3637 475925063 475923369 0.000000e+00 2111.0
6 TraesCS1A01G410800 chr1D 86.630 1092 68 37 819 1846 475926332 475925255 0.000000e+00 1136.0
7 TraesCS1A01G410800 chr1D 82.258 620 81 13 3020 3631 475914039 475913441 3.240000e-140 508.0
8 TraesCS1A01G410800 chr1D 91.667 252 19 2 3366 3616 475864295 475864045 7.470000e-92 348.0
9 TraesCS1A01G410800 chr1D 86.913 298 33 6 3306 3599 475919252 475918957 2.710000e-86 329.0
10 TraesCS1A01G410800 chr1D 98.795 83 1 0 894 976 475927584 475927502 8.140000e-32 148.0
11 TraesCS1A01G410800 chr1B 85.041 1210 65 33 899 2006 662023376 662022181 0.000000e+00 1125.0
12 TraesCS1A01G410800 chr1B 91.711 748 39 11 2899 3634 662021243 662020507 0.000000e+00 1016.0
13 TraesCS1A01G410800 chr1B 91.134 688 40 9 2173 2854 662021926 662021254 0.000000e+00 913.0
14 TraesCS1A01G410800 chr1B 86.037 487 55 7 3151 3631 662005890 662005411 9.010000e-141 510.0
15 TraesCS1A01G410800 chr1B 87.097 341 31 7 3306 3637 662016939 662016603 1.230000e-99 374.0
16 TraesCS1A01G410800 chr1B 81.237 485 55 13 3135 3616 661930357 661929906 3.450000e-95 359.0
17 TraesCS1A01G410800 chr7D 89.474 741 55 18 30 753 32937942 32937208 0.000000e+00 915.0
18 TraesCS1A01G410800 chr2A 88.389 689 60 9 2 676 278147 277465 0.000000e+00 811.0
19 TraesCS1A01G410800 chr2D 86.053 760 62 15 1 746 625172065 625171336 0.000000e+00 776.0
20 TraesCS1A01G410800 chr2D 83.824 680 83 20 80 745 637136896 637136230 3.990000e-174 621.0
21 TraesCS1A01G410800 chr2D 81.638 757 98 23 1 746 474639954 474639228 1.120000e-164 590.0
22 TraesCS1A01G410800 chr2D 94.479 163 5 3 1 162 535733048 535732889 7.800000e-62 248.0
23 TraesCS1A01G410800 chr3D 84.575 765 88 23 1 746 423859613 423860366 0.000000e+00 732.0
24 TraesCS1A01G410800 chr2B 83.483 666 73 15 2962 3626 99521484 99520855 1.460000e-163 586.0
25 TraesCS1A01G410800 chr2B 87.286 409 40 9 2403 2801 99555799 99555393 1.190000e-124 457.0
26 TraesCS1A01G410800 chr2B 90.476 63 5 1 748 810 239824384 239824323 8.370000e-12 82.4
27 TraesCS1A01G410800 chr2B 87.302 63 5 1 748 807 673172036 673171974 6.520000e-08 69.4
28 TraesCS1A01G410800 chr5B 82.769 679 91 21 84 748 459553493 459552827 1.880000e-162 582.0
29 TraesCS1A01G410800 chr4B 82.970 505 58 6 3120 3624 357954992 357955468 7.210000e-117 431.0
30 TraesCS1A01G410800 chr4B 85.930 398 37 10 2010 2404 357911002 357911383 1.220000e-109 407.0
31 TraesCS1A01G410800 chr7A 95.031 161 7 1 1 161 235471148 235471307 6.030000e-63 252.0
32 TraesCS1A01G410800 chr4D 88.235 204 17 7 2478 2678 240937508 240937309 1.690000e-58 237.0
33 TraesCS1A01G410800 chr4A 85.393 178 17 5 2021 2195 261876868 261877039 3.730000e-40 176.0
34 TraesCS1A01G410800 chr3B 94.828 58 3 0 751 808 489510133 489510190 1.390000e-14 91.6
35 TraesCS1A01G410800 chr6B 93.333 60 4 0 751 810 151647543 151647484 5.000000e-14 89.8
36 TraesCS1A01G410800 chr5D 92.308 52 3 1 3512 3563 293163851 293163801 5.040000e-09 73.1


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS1A01G410800 chr1A 571787253 571790889 3636 True 6717.000000 6717 100.000000 1 3637 1 chr1A.!!$R3 3636
1 TraesCS1A01G410800 chr1A 455015765 455016525 760 False 979.000000 979 90.365000 1 744 1 chr1A.!!$F2 743
2 TraesCS1A01G410800 chr1A 20410848 20411525 677 False 616.000000 616 83.528000 80 746 1 chr1A.!!$F1 666
3 TraesCS1A01G410800 chr1A 571737710 571738334 624 True 514.000000 514 82.215000 3017 3631 1 chr1A.!!$R2 614
4 TraesCS1A01G410800 chr1D 475923369 475927584 4215 True 1131.666667 2111 91.585333 819 3637 3 chr1D.!!$R4 2818
5 TraesCS1A01G410800 chr1D 475913441 475914039 598 True 508.000000 508 82.258000 3020 3631 1 chr1D.!!$R2 611
6 TraesCS1A01G410800 chr1B 662016603 662023376 6773 True 857.000000 1125 88.745750 899 3637 4 chr1B.!!$R3 2738
7 TraesCS1A01G410800 chr7D 32937208 32937942 734 True 915.000000 915 89.474000 30 753 1 chr7D.!!$R1 723
8 TraesCS1A01G410800 chr2A 277465 278147 682 True 811.000000 811 88.389000 2 676 1 chr2A.!!$R1 674
9 TraesCS1A01G410800 chr2D 625171336 625172065 729 True 776.000000 776 86.053000 1 746 1 chr2D.!!$R3 745
10 TraesCS1A01G410800 chr2D 637136230 637136896 666 True 621.000000 621 83.824000 80 745 1 chr2D.!!$R4 665
11 TraesCS1A01G410800 chr2D 474639228 474639954 726 True 590.000000 590 81.638000 1 746 1 chr2D.!!$R1 745
12 TraesCS1A01G410800 chr3D 423859613 423860366 753 False 732.000000 732 84.575000 1 746 1 chr3D.!!$F1 745
13 TraesCS1A01G410800 chr2B 99520855 99521484 629 True 586.000000 586 83.483000 2962 3626 1 chr2B.!!$R1 664
14 TraesCS1A01G410800 chr5B 459552827 459553493 666 True 582.000000 582 82.769000 84 748 1 chr5B.!!$R1 664

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
791 850 0.110056 CAATGATAAGCCCGCGATGC 60.110 55.0 8.23 10.55 0.00 3.91 F
792 851 0.250467 AATGATAAGCCCGCGATGCT 60.250 50.0 15.94 15.94 41.89 3.79 F
844 1279 0.537188 CCTGTACCTGGTCGAGCATT 59.463 55.0 18.98 10.75 0.00 3.56 F
1857 2416 0.458370 CAAAGCAACCGGCCAATAGC 60.458 55.0 0.00 0.52 46.50 2.97 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1594 2096 0.171903 GCCACACCATTCATGACAGC 59.828 55.000 0.00 0.00 0.0 4.40 R
1715 2237 1.360820 TGAGCAACGTTTTGTCGACA 58.639 45.000 15.76 15.76 34.9 4.35 R
2463 3320 1.620819 AGAGGATGGTGATGTATCGGC 59.379 52.381 0.00 0.00 0.0 5.54 R
2885 3753 0.546122 TCTGAACAACACTGGCCACT 59.454 50.000 0.00 0.00 0.0 4.00 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
223 231 1.597663 CGAGAGTCACGGTTTTGCTTT 59.402 47.619 1.62 0.00 0.00 3.51
237 245 1.811266 GCTTTCGCGAGAGGCATGA 60.811 57.895 25.84 0.00 43.84 3.07
258 266 1.790755 TGTGCTTACGCGAAAGTCAT 58.209 45.000 15.93 0.00 39.65 3.06
333 353 2.693074 AGTCAGGGTTTTGTTTTCGCAT 59.307 40.909 0.00 0.00 0.00 4.73
344 364 1.263217 GTTTTCGCATGAGTCACGGTT 59.737 47.619 0.00 0.00 0.00 4.44
751 810 9.449719 ACTCCTTAATTAGTGATTTCGATTGTT 57.550 29.630 0.00 0.00 0.00 2.83
761 820 7.807680 AGTGATTTCGATTGTTTTAACTCTCC 58.192 34.615 0.00 0.00 0.00 3.71
762 821 7.661847 AGTGATTTCGATTGTTTTAACTCTCCT 59.338 33.333 0.00 0.00 0.00 3.69
763 822 7.958025 GTGATTTCGATTGTTTTAACTCTCCTC 59.042 37.037 0.00 0.00 0.00 3.71
766 825 4.929808 TCGATTGTTTTAACTCTCCTCTGC 59.070 41.667 0.00 0.00 0.00 4.26
768 827 6.071560 TCGATTGTTTTAACTCTCCTCTGCTA 60.072 38.462 0.00 0.00 0.00 3.49
769 828 6.590292 CGATTGTTTTAACTCTCCTCTGCTAA 59.410 38.462 0.00 0.00 0.00 3.09
770 829 7.117812 CGATTGTTTTAACTCTCCTCTGCTAAA 59.882 37.037 0.00 0.00 0.00 1.85
771 830 8.870075 ATTGTTTTAACTCTCCTCTGCTAAAT 57.130 30.769 0.00 0.00 0.00 1.40
772 831 7.907214 TGTTTTAACTCTCCTCTGCTAAATC 57.093 36.000 0.00 0.00 0.00 2.17
775 834 8.951243 GTTTTAACTCTCCTCTGCTAAATCAAT 58.049 33.333 0.00 0.00 0.00 2.57
776 835 8.498054 TTTAACTCTCCTCTGCTAAATCAATG 57.502 34.615 0.00 0.00 0.00 2.82
779 838 7.609097 ACTCTCCTCTGCTAAATCAATGATA 57.391 36.000 0.00 0.00 0.00 2.15
780 839 8.027524 ACTCTCCTCTGCTAAATCAATGATAA 57.972 34.615 0.00 0.00 0.00 1.75
781 840 8.149647 ACTCTCCTCTGCTAAATCAATGATAAG 58.850 37.037 0.00 0.00 0.00 1.73
783 842 6.000219 TCCTCTGCTAAATCAATGATAAGCC 59.000 40.000 20.71 9.14 33.20 4.35
784 843 5.182760 CCTCTGCTAAATCAATGATAAGCCC 59.817 44.000 20.71 3.45 33.20 5.19
786 845 3.253188 TGCTAAATCAATGATAAGCCCGC 59.747 43.478 20.71 9.28 33.20 6.13
787 846 3.667960 GCTAAATCAATGATAAGCCCGCG 60.668 47.826 15.61 0.00 30.09 6.46
788 847 2.254546 AATCAATGATAAGCCCGCGA 57.745 45.000 8.23 0.00 0.00 5.87
790 849 1.511850 TCAATGATAAGCCCGCGATG 58.488 50.000 8.23 0.00 0.00 3.84
791 850 0.110056 CAATGATAAGCCCGCGATGC 60.110 55.000 8.23 10.55 0.00 3.91
792 851 0.250467 AATGATAAGCCCGCGATGCT 60.250 50.000 15.94 15.94 41.89 3.79
793 852 0.952497 ATGATAAGCCCGCGATGCTG 60.952 55.000 21.09 0.00 39.48 4.41
796 855 2.116983 ATAAGCCCGCGATGCTGGAT 62.117 55.000 21.09 15.15 39.48 3.41
797 856 2.715532 TAAGCCCGCGATGCTGGATC 62.716 60.000 21.09 0.00 39.48 3.36
803 862 1.009078 CGCGATGCTGGATCTTTCAA 58.991 50.000 0.00 0.00 0.00 2.69
843 1278 1.961180 GCCTGTACCTGGTCGAGCAT 61.961 60.000 18.98 6.87 0.00 3.79
844 1279 0.537188 CCTGTACCTGGTCGAGCATT 59.463 55.000 18.98 10.75 0.00 3.56
845 1280 1.645034 CTGTACCTGGTCGAGCATTG 58.355 55.000 18.98 14.55 0.00 2.82
846 1281 0.973632 TGTACCTGGTCGAGCATTGT 59.026 50.000 18.98 19.32 0.00 2.71
847 1282 1.337728 TGTACCTGGTCGAGCATTGTG 60.338 52.381 18.98 6.18 0.00 3.33
857 1293 2.497770 GCATTGTGCTCATGGGCC 59.502 61.111 16.70 7.13 40.96 5.80
860 1296 3.286694 ATTGTGCTCATGGGCCGGT 62.287 57.895 16.70 0.00 0.00 5.28
862 1298 2.513897 GTGCTCATGGGCCGGTAC 60.514 66.667 16.70 1.94 0.00 3.34
878 1314 2.597818 TACGCAGCCCATGTCCCAA 61.598 57.895 0.00 0.00 0.00 4.12
881 1317 0.751277 CGCAGCCCATGTCCCAATTA 60.751 55.000 0.00 0.00 0.00 1.40
892 1328 2.224992 TGTCCCAATTAGCCAGCTTTGA 60.225 45.455 0.00 0.00 0.00 2.69
893 1329 2.424956 GTCCCAATTAGCCAGCTTTGAG 59.575 50.000 0.00 0.00 0.00 3.02
894 1330 2.308570 TCCCAATTAGCCAGCTTTGAGA 59.691 45.455 0.00 0.00 0.00 3.27
895 1331 2.424956 CCCAATTAGCCAGCTTTGAGAC 59.575 50.000 0.00 0.00 0.00 3.36
896 1332 2.424956 CCAATTAGCCAGCTTTGAGACC 59.575 50.000 0.00 0.00 0.00 3.85
897 1333 3.084039 CAATTAGCCAGCTTTGAGACCA 58.916 45.455 0.00 0.00 0.00 4.02
990 1427 2.607750 AGCTCGCCCTTCCTTCCA 60.608 61.111 0.00 0.00 0.00 3.53
1081 1518 2.442272 GCAGCTACCTCCTCGGGA 60.442 66.667 0.00 0.00 36.97 5.14
1391 1833 4.211374 GCTGTTTTCACGTGTCAATCTAGT 59.789 41.667 16.51 0.00 0.00 2.57
1392 1834 5.277345 GCTGTTTTCACGTGTCAATCTAGTT 60.277 40.000 16.51 0.00 0.00 2.24
1425 1869 3.602483 TGGGGAGCGAAAATACTTGTAC 58.398 45.455 0.00 0.00 0.00 2.90
1426 1870 3.008157 TGGGGAGCGAAAATACTTGTACA 59.992 43.478 0.00 0.00 0.00 2.90
1430 1874 6.316890 GGGGAGCGAAAATACTTGTACATTTA 59.683 38.462 0.00 0.00 0.00 1.40
1432 1876 7.279313 GGGAGCGAAAATACTTGTACATTTAGA 59.721 37.037 0.00 0.00 0.00 2.10
1442 1918 5.872070 ACTTGTACATTTAGAAGAGCAGAGC 59.128 40.000 0.00 0.00 33.64 4.09
1452 1928 1.209640 GAGCAGAGCAGCAGCAAAC 59.790 57.895 3.17 0.00 45.49 2.93
1456 1932 1.604693 GCAGAGCAGCAGCAAACATTT 60.605 47.619 3.17 0.00 45.49 2.32
1463 1939 3.122445 GCAGCAGCAAACATTTTAGAAGC 59.878 43.478 0.00 0.00 41.58 3.86
1471 1947 5.795441 GCAAACATTTTAGAAGCGGTTAGAG 59.205 40.000 0.00 0.00 0.00 2.43
1496 1972 1.331756 GAATGTGAATGCTACTGGGCG 59.668 52.381 0.00 0.00 34.52 6.13
1594 2096 6.822170 TGGATTTCATCATGAGAAACTGAGAG 59.178 38.462 17.15 0.00 37.76 3.20
1619 2132 0.740868 ATGAATGGTGTGGCGAGACG 60.741 55.000 0.00 0.00 0.00 4.18
1715 2237 7.121759 AGCTTACATCTGCAAAATGTGTTCTAT 59.878 33.333 19.59 3.74 37.86 1.98
1857 2416 0.458370 CAAAGCAACCGGCCAATAGC 60.458 55.000 0.00 0.52 46.50 2.97
1870 2429 5.451798 CCGGCCAATAGCTTTTATGATGTTT 60.452 40.000 2.24 0.00 43.05 2.83
1886 2445 2.318908 TGTTTGCATCTTCCCAAAGCT 58.681 42.857 0.00 0.00 32.18 3.74
1887 2446 2.297033 TGTTTGCATCTTCCCAAAGCTC 59.703 45.455 0.00 0.00 32.18 4.09
1891 2450 1.888512 GCATCTTCCCAAAGCTCAACA 59.111 47.619 0.00 0.00 32.18 3.33
1895 2459 5.544650 CATCTTCCCAAAGCTCAACATTTT 58.455 37.500 0.00 0.00 32.18 1.82
1901 2465 7.775053 TCCCAAAGCTCAACATTTTAACTAT 57.225 32.000 0.00 0.00 0.00 2.12
1917 2481 6.693315 TTAACTATAGCCAAGGCAAATGAC 57.307 37.500 14.40 0.00 44.88 3.06
1928 2492 3.221771 AGGCAAATGACTAACACAAGCA 58.778 40.909 0.00 0.00 0.00 3.91
1957 2671 7.922837 AGAAAAGAAAATTTGATGCTGGTTTG 58.077 30.769 0.00 0.00 0.00 2.93
1968 2682 1.761784 TGCTGGTTTGTTTTGGAGCAT 59.238 42.857 0.00 0.00 31.66 3.79
1971 2685 3.248363 GCTGGTTTGTTTTGGAGCATTTC 59.752 43.478 0.00 0.00 0.00 2.17
1972 2686 4.440880 CTGGTTTGTTTTGGAGCATTTCA 58.559 39.130 0.00 0.00 0.00 2.69
2001 2720 1.996798 TCAGGTCGTTGGAGAAGACT 58.003 50.000 0.00 0.00 35.42 3.24
2009 2728 6.380274 AGGTCGTTGGAGAAGACTTATAATGA 59.620 38.462 0.00 0.00 35.42 2.57
2042 2887 6.600882 ATTTGTAGAACGAAGTAGGAAGGA 57.399 37.500 0.00 0.00 45.00 3.36
2050 2895 3.007723 ACGAAGTAGGAAGGAAAAGGGAC 59.992 47.826 0.00 0.00 41.94 4.46
2072 2917 3.181540 CGTTGAAATCAGTAGAGTGCACG 60.182 47.826 12.01 0.00 24.25 5.34
2090 2935 6.072508 AGTGCACGATCAATCAAAATGTTACT 60.073 34.615 12.01 0.00 0.00 2.24
2091 2936 6.032775 GTGCACGATCAATCAAAATGTTACTG 59.967 38.462 0.00 0.00 0.00 2.74
2093 2938 6.032775 GCACGATCAATCAAAATGTTACTGTG 59.967 38.462 0.00 0.00 0.00 3.66
2094 2939 6.032775 CACGATCAATCAAAATGTTACTGTGC 59.967 38.462 0.00 0.00 0.00 4.57
2095 2940 5.225743 CGATCAATCAAAATGTTACTGTGCG 59.774 40.000 0.00 0.00 0.00 5.34
2136 2981 7.045126 ACGAACCAATTTGTTCCTCAATTAA 57.955 32.000 14.82 0.00 41.24 1.40
2141 2986 7.961351 ACCAATTTGTTCCTCAATTAATGTGA 58.039 30.769 0.00 0.00 35.84 3.58
2142 2987 8.428063 ACCAATTTGTTCCTCAATTAATGTGAA 58.572 29.630 0.00 0.00 35.84 3.18
2147 2992 9.695526 TTTGTTCCTCAATTAATGTGAATCTTG 57.304 29.630 0.00 0.00 35.84 3.02
2148 2993 8.634335 TGTTCCTCAATTAATGTGAATCTTGA 57.366 30.769 0.00 0.00 0.00 3.02
2198 3043 5.404466 TTGCCATTTGATTGGGACTTAAG 57.596 39.130 0.00 0.00 36.77 1.85
2203 3048 5.476599 CCATTTGATTGGGACTTAAGTGTCA 59.523 40.000 14.14 8.06 38.61 3.58
2237 3085 4.162131 TGTGTATGTGTCCATCTGCTGTAT 59.838 41.667 0.00 0.00 32.29 2.29
2238 3086 5.362430 TGTGTATGTGTCCATCTGCTGTATA 59.638 40.000 0.00 0.00 32.29 1.47
2239 3087 5.923114 GTGTATGTGTCCATCTGCTGTATAG 59.077 44.000 0.00 0.00 32.29 1.31
2240 3088 5.598417 TGTATGTGTCCATCTGCTGTATAGT 59.402 40.000 0.00 0.00 32.29 2.12
2241 3089 4.391405 TGTGTCCATCTGCTGTATAGTG 57.609 45.455 0.00 0.00 0.00 2.74
2242 3090 3.769300 TGTGTCCATCTGCTGTATAGTGT 59.231 43.478 0.00 0.00 0.00 3.55
2243 3091 4.953579 TGTGTCCATCTGCTGTATAGTGTA 59.046 41.667 0.00 0.00 0.00 2.90
2244 3092 5.598417 TGTGTCCATCTGCTGTATAGTGTAT 59.402 40.000 0.00 0.00 0.00 2.29
2249 3097 8.307483 GTCCATCTGCTGTATAGTGTATACATT 58.693 37.037 9.18 7.53 46.98 2.71
2252 3100 6.455647 TCTGCTGTATAGTGTATACATTGGC 58.544 40.000 9.18 7.67 46.98 4.52
2298 3147 7.344095 AGTTTCCGCTATTTAGTTAGCTAGA 57.656 36.000 0.00 0.00 41.99 2.43
2325 3176 3.868757 TTACCTCCTCTCACGTCATTG 57.131 47.619 0.00 0.00 0.00 2.82
2408 3259 5.887598 TGCTGGGATATATGGTAATTGCATC 59.112 40.000 0.00 0.00 0.00 3.91
2443 3295 6.618287 TTTCAGTGAATCTTACACACCTTG 57.382 37.500 6.36 0.00 40.25 3.61
2444 3296 5.545063 TCAGTGAATCTTACACACCTTGA 57.455 39.130 0.00 0.00 40.25 3.02
2445 3297 6.114187 TCAGTGAATCTTACACACCTTGAT 57.886 37.500 0.00 0.00 40.25 2.57
2446 3298 6.166279 TCAGTGAATCTTACACACCTTGATC 58.834 40.000 0.00 0.00 40.25 2.92
2448 3300 5.047306 AGTGAATCTTACACACCTTGATCGA 60.047 40.000 0.00 0.00 40.25 3.59
2449 3301 5.062308 GTGAATCTTACACACCTTGATCGAC 59.938 44.000 0.00 0.00 38.05 4.20
2463 3320 7.904977 CACCTTGATCGACACAATAAGTATTTG 59.095 37.037 7.21 0.00 0.00 2.32
2468 3325 5.113383 TCGACACAATAAGTATTTGCCGAT 58.887 37.500 0.00 0.00 0.00 4.18
2514 3371 0.899720 TTCATTACGGGACCTCGCTT 59.100 50.000 2.68 0.00 0.00 4.68
2517 3374 0.899720 ATTACGGGACCTCGCTTTCA 59.100 50.000 2.68 0.00 0.00 2.69
2526 3383 2.749621 GACCTCGCTTTCAAATGTGGAT 59.250 45.455 0.00 0.00 0.00 3.41
2535 3392 3.965379 TCAAATGTGGATTTGCTGCAT 57.035 38.095 1.84 0.00 45.61 3.96
2562 3419 0.108138 CGGAATCGCTTCTCACCCTT 60.108 55.000 0.00 0.00 0.00 3.95
2571 3428 3.132289 CGCTTCTCACCCTTACCAATCTA 59.868 47.826 0.00 0.00 0.00 1.98
2734 3595 1.214175 TGAGAACCTTTTCCTGGTGCA 59.786 47.619 0.00 0.00 37.93 4.57
2736 3597 2.489722 GAGAACCTTTTCCTGGTGCATC 59.510 50.000 0.00 0.00 37.93 3.91
2854 3722 4.516321 TGTGCATGTGCTGATCCATAATAC 59.484 41.667 6.55 0.00 42.66 1.89
2855 3723 4.758674 GTGCATGTGCTGATCCATAATACT 59.241 41.667 6.55 0.00 42.66 2.12
2856 3724 5.934043 GTGCATGTGCTGATCCATAATACTA 59.066 40.000 6.55 0.00 42.66 1.82
2857 3725 5.934043 TGCATGTGCTGATCCATAATACTAC 59.066 40.000 6.55 0.00 42.66 2.73
2858 3726 6.169094 GCATGTGCTGATCCATAATACTACT 58.831 40.000 0.00 0.00 38.21 2.57
2861 3729 7.220741 TGTGCTGATCCATAATACTACTCTC 57.779 40.000 0.00 0.00 0.00 3.20
2863 3731 7.175816 TGTGCTGATCCATAATACTACTCTCTC 59.824 40.741 0.00 0.00 0.00 3.20
2864 3732 7.393234 GTGCTGATCCATAATACTACTCTCTCT 59.607 40.741 0.00 0.00 0.00 3.10
2865 3733 7.392953 TGCTGATCCATAATACTACTCTCTCTG 59.607 40.741 0.00 0.00 0.00 3.35
2866 3734 7.393234 GCTGATCCATAATACTACTCTCTCTGT 59.607 40.741 0.00 0.00 0.00 3.41
2867 3735 9.952030 CTGATCCATAATACTACTCTCTCTGTA 57.048 37.037 0.00 0.00 0.00 2.74
2870 3738 9.747898 ATCCATAATACTACTCTCTCTGTAAGG 57.252 37.037 0.00 0.00 0.00 2.69
2871 3739 8.946248 TCCATAATACTACTCTCTCTGTAAGGA 58.054 37.037 0.00 0.00 0.00 3.36
2873 3741 9.226606 CATAATACTACTCTCTCTGTAAGGAGG 57.773 40.741 0.00 0.00 33.69 4.30
2874 3742 4.513406 ACTACTCTCTCTGTAAGGAGGG 57.487 50.000 0.00 0.00 37.63 4.30
2875 3743 4.113085 ACTACTCTCTCTGTAAGGAGGGA 58.887 47.826 0.00 0.00 40.16 4.20
2882 3750 7.409408 TCTCTCTGTAAGGAGGGAGTATATT 57.591 40.000 0.00 0.00 37.85 1.28
2884 3752 5.775701 TCTCTGTAAGGAGGGAGTATATTGC 59.224 44.000 0.00 0.00 34.39 3.56
2885 3753 5.464069 TCTGTAAGGAGGGAGTATATTGCA 58.536 41.667 0.00 0.00 0.00 4.08
2886 3754 5.540337 TCTGTAAGGAGGGAGTATATTGCAG 59.460 44.000 0.00 0.00 33.42 4.41
2888 3756 4.696479 AAGGAGGGAGTATATTGCAGTG 57.304 45.455 0.00 0.00 0.00 3.66
2889 3757 2.975489 AGGAGGGAGTATATTGCAGTGG 59.025 50.000 0.00 0.00 0.00 4.00
2890 3758 2.551071 GGAGGGAGTATATTGCAGTGGC 60.551 54.545 0.00 0.00 41.68 5.01
2891 3759 1.421646 AGGGAGTATATTGCAGTGGCC 59.578 52.381 0.00 0.00 40.13 5.36
2892 3760 1.142870 GGGAGTATATTGCAGTGGCCA 59.857 52.381 0.00 0.00 40.13 5.36
2893 3761 2.498167 GGAGTATATTGCAGTGGCCAG 58.502 52.381 5.11 0.00 40.13 4.85
2894 3762 2.158755 GGAGTATATTGCAGTGGCCAGT 60.159 50.000 5.11 6.41 40.13 4.00
2895 3763 2.874701 GAGTATATTGCAGTGGCCAGTG 59.125 50.000 32.59 32.59 40.13 3.66
2896 3764 2.239654 AGTATATTGCAGTGGCCAGTGT 59.760 45.455 35.27 21.78 40.13 3.55
2897 3765 2.220653 ATATTGCAGTGGCCAGTGTT 57.779 45.000 35.27 24.16 40.13 3.32
2940 3808 0.550914 TTGGTGTTCTTCCAGTGGCT 59.449 50.000 3.51 0.00 36.28 4.75
2948 3816 4.184629 GTTCTTCCAGTGGCTAGTGTATG 58.815 47.826 3.51 0.00 0.00 2.39
2987 3861 7.695480 ACTAGTGATGGTGCTATATCTACTG 57.305 40.000 0.00 0.00 0.00 2.74
2988 3862 5.398603 AGTGATGGTGCTATATCTACTGC 57.601 43.478 0.00 0.00 0.00 4.40
2991 3865 5.047731 GTGATGGTGCTATATCTACTGCAGA 60.048 44.000 23.35 0.00 36.03 4.26
2992 3866 5.718607 TGATGGTGCTATATCTACTGCAGAT 59.281 40.000 23.35 6.43 46.19 2.90
3056 3933 9.796180 ATCTAAGTACTAGTGGGAATACAGTAG 57.204 37.037 5.39 6.53 45.56 2.57
3132 4027 0.241213 TCCAGAACAGCTCGTCGAAG 59.759 55.000 0.00 0.00 0.00 3.79
3281 4176 2.989639 CCACTGCATCCCTTCCGA 59.010 61.111 0.00 0.00 0.00 4.55
3286 4181 4.162690 GCATCCCTTCCGACGCCT 62.163 66.667 0.00 0.00 0.00 5.52
3324 4219 4.666253 TGCTGCTGTTCCTGGCCC 62.666 66.667 0.00 0.00 0.00 5.80
3355 4250 2.125391 GCTGCTGATCTGTGCCGA 60.125 61.111 1.27 0.00 0.00 5.54
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
223 231 0.807275 CACAATCATGCCTCTCGCGA 60.807 55.000 9.26 9.26 42.08 5.87
749 808 7.907214 TGATTTAGCAGAGGAGAGTTAAAAC 57.093 36.000 0.00 0.00 0.00 2.43
750 809 8.950210 CATTGATTTAGCAGAGGAGAGTTAAAA 58.050 33.333 0.00 0.00 0.00 1.52
751 810 8.321353 TCATTGATTTAGCAGAGGAGAGTTAAA 58.679 33.333 0.00 0.00 0.00 1.52
756 815 7.118101 GCTTATCATTGATTTAGCAGAGGAGAG 59.882 40.741 20.09 0.00 32.55 3.20
757 816 6.933521 GCTTATCATTGATTTAGCAGAGGAGA 59.066 38.462 20.09 0.00 32.55 3.71
758 817 6.149142 GGCTTATCATTGATTTAGCAGAGGAG 59.851 42.308 23.55 0.00 33.32 3.69
759 818 6.000219 GGCTTATCATTGATTTAGCAGAGGA 59.000 40.000 23.55 0.00 33.32 3.71
760 819 5.182760 GGGCTTATCATTGATTTAGCAGAGG 59.817 44.000 23.55 3.19 33.32 3.69
761 820 5.106791 CGGGCTTATCATTGATTTAGCAGAG 60.107 44.000 23.55 15.13 33.32 3.35
762 821 4.756642 CGGGCTTATCATTGATTTAGCAGA 59.243 41.667 23.55 0.00 33.32 4.26
763 822 4.614535 GCGGGCTTATCATTGATTTAGCAG 60.615 45.833 23.55 19.33 33.32 4.24
766 825 3.745975 TCGCGGGCTTATCATTGATTTAG 59.254 43.478 6.13 4.55 0.00 1.85
768 827 2.571212 TCGCGGGCTTATCATTGATTT 58.429 42.857 6.13 0.00 0.00 2.17
769 828 2.254546 TCGCGGGCTTATCATTGATT 57.745 45.000 6.13 0.00 0.00 2.57
770 829 2.079158 CATCGCGGGCTTATCATTGAT 58.921 47.619 6.13 4.28 0.00 2.57
771 830 1.511850 CATCGCGGGCTTATCATTGA 58.488 50.000 6.13 0.00 0.00 2.57
772 831 0.110056 GCATCGCGGGCTTATCATTG 60.110 55.000 6.13 0.00 0.00 2.82
775 834 1.595109 CAGCATCGCGGGCTTATCA 60.595 57.895 20.83 0.00 40.23 2.15
776 835 2.320587 CCAGCATCGCGGGCTTATC 61.321 63.158 20.83 0.00 40.23 1.75
779 838 4.181010 ATCCAGCATCGCGGGCTT 62.181 61.111 20.83 6.95 43.33 4.35
780 839 4.615815 GATCCAGCATCGCGGGCT 62.616 66.667 18.33 18.33 43.33 5.19
781 840 4.615815 AGATCCAGCATCGCGGGC 62.616 66.667 6.13 11.29 43.33 6.13
783 842 0.811219 TGAAAGATCCAGCATCGCGG 60.811 55.000 6.13 0.00 36.50 6.46
784 843 1.009078 TTGAAAGATCCAGCATCGCG 58.991 50.000 0.00 0.00 36.50 5.87
822 881 1.682684 CTCGACCAGGTACAGGCCT 60.683 63.158 0.00 0.00 39.28 5.19
829 1264 0.391130 GCACAATGCTCGACCAGGTA 60.391 55.000 0.00 0.00 40.96 3.08
830 1265 1.672356 GCACAATGCTCGACCAGGT 60.672 57.895 0.00 0.00 40.96 4.00
831 1266 3.181367 GCACAATGCTCGACCAGG 58.819 61.111 0.00 0.00 40.96 4.45
843 1278 2.597818 TACCGGCCCATGAGCACAA 61.598 57.895 0.00 0.00 0.00 3.33
844 1279 3.006133 TACCGGCCCATGAGCACA 61.006 61.111 0.00 0.00 0.00 4.57
845 1280 2.513897 GTACCGGCCCATGAGCAC 60.514 66.667 0.00 0.00 0.00 4.40
846 1281 4.155733 CGTACCGGCCCATGAGCA 62.156 66.667 0.00 0.00 0.00 4.26
857 1293 2.890474 GACATGGGCTGCGTACCG 60.890 66.667 0.00 0.00 0.00 4.02
860 1296 1.920734 ATTGGGACATGGGCTGCGTA 61.921 55.000 0.00 0.00 39.30 4.42
862 1298 0.751277 TAATTGGGACATGGGCTGCG 60.751 55.000 0.00 0.00 39.30 5.18
865 1301 0.106015 GGCTAATTGGGACATGGGCT 60.106 55.000 0.00 0.00 39.30 5.19
871 1307 2.170166 CAAAGCTGGCTAATTGGGACA 58.830 47.619 0.00 0.00 0.00 4.02
873 1309 2.308570 TCTCAAAGCTGGCTAATTGGGA 59.691 45.455 5.72 5.72 30.15 4.37
878 1314 3.350833 CTTGGTCTCAAAGCTGGCTAAT 58.649 45.455 0.00 0.00 31.77 1.73
881 1317 0.892814 GCTTGGTCTCAAAGCTGGCT 60.893 55.000 2.07 0.00 31.77 4.75
1081 1518 1.375326 GTTTGGGGAGAAGGACGCT 59.625 57.895 0.00 0.00 0.00 5.07
1185 1625 2.279120 GCGATGCTCTGGGAGTCG 60.279 66.667 0.00 4.08 33.37 4.18
1339 1781 1.074850 GGGAAGAGGAGGAGGAGGG 60.075 68.421 0.00 0.00 0.00 4.30
1391 1833 1.479709 CTCCCCAACCACAACAACAA 58.520 50.000 0.00 0.00 0.00 2.83
1392 1834 1.040339 GCTCCCCAACCACAACAACA 61.040 55.000 0.00 0.00 0.00 3.33
1425 1869 3.268330 TGCTGCTCTGCTCTTCTAAATG 58.732 45.455 0.00 0.00 0.00 2.32
1426 1870 3.533547 CTGCTGCTCTGCTCTTCTAAAT 58.466 45.455 0.00 0.00 0.00 1.40
1430 1874 1.078988 GCTGCTGCTCTGCTCTTCT 60.079 57.895 8.53 0.00 36.79 2.85
1432 1876 0.536687 TTTGCTGCTGCTCTGCTCTT 60.537 50.000 17.00 0.00 39.95 2.85
1442 1918 3.362831 CGCTTCTAAAATGTTTGCTGCTG 59.637 43.478 0.00 0.00 0.00 4.41
1452 1928 6.590292 TCAGTTCTCTAACCGCTTCTAAAATG 59.410 38.462 0.00 0.00 36.15 2.32
1456 1932 5.717078 TTCAGTTCTCTAACCGCTTCTAA 57.283 39.130 0.00 0.00 36.15 2.10
1463 1939 5.446473 GCATTCACATTCAGTTCTCTAACCG 60.446 44.000 0.00 0.00 36.15 4.44
1471 1947 4.095483 CCCAGTAGCATTCACATTCAGTTC 59.905 45.833 0.00 0.00 0.00 3.01
1496 1972 3.879892 GACCTTCTGATAGTGGCCAAATC 59.120 47.826 7.24 14.82 0.00 2.17
1567 2069 7.282450 TCTCAGTTTCTCATGATGAAATCCATG 59.718 37.037 17.55 14.61 44.73 3.66
1594 2096 0.171903 GCCACACCATTCATGACAGC 59.828 55.000 0.00 0.00 0.00 4.40
1626 2139 4.099727 AGCCACATAATGCATGCACAATTA 59.900 37.500 25.37 18.13 38.29 1.40
1627 2140 3.118555 AGCCACATAATGCATGCACAATT 60.119 39.130 25.37 16.38 38.29 2.32
1628 2141 2.432874 AGCCACATAATGCATGCACAAT 59.567 40.909 25.37 16.49 38.29 2.71
1629 2142 1.826096 AGCCACATAATGCATGCACAA 59.174 42.857 25.37 14.72 38.29 3.33
1715 2237 1.360820 TGAGCAACGTTTTGTCGACA 58.639 45.000 15.76 15.76 34.90 4.35
1870 2429 1.888512 GTTGAGCTTTGGGAAGATGCA 59.111 47.619 0.00 0.00 34.71 3.96
1886 2445 6.661377 TGCCTTGGCTATAGTTAAAATGTTGA 59.339 34.615 13.18 0.00 0.00 3.18
1887 2446 6.862209 TGCCTTGGCTATAGTTAAAATGTTG 58.138 36.000 13.18 0.00 0.00 3.33
1891 2450 8.197439 GTCATTTGCCTTGGCTATAGTTAAAAT 58.803 33.333 13.18 5.09 0.00 1.82
1895 2459 6.001449 AGTCATTTGCCTTGGCTATAGTTA 57.999 37.500 13.18 0.00 0.00 2.24
1901 2465 3.756434 GTGTTAGTCATTTGCCTTGGCTA 59.244 43.478 13.18 2.12 30.30 3.93
1917 2481 9.683069 ATTTTCTTTTCTACATGCTTGTGTTAG 57.317 29.630 15.08 5.22 36.53 2.34
1928 2492 8.370182 ACCAGCATCAAATTTTCTTTTCTACAT 58.630 29.630 0.00 0.00 0.00 2.29
1957 2671 8.986477 AATTATGTACTGAAATGCTCCAAAAC 57.014 30.769 0.00 0.00 0.00 2.43
1968 2682 6.370442 CCAACGACCTGAATTATGTACTGAAA 59.630 38.462 0.00 0.00 0.00 2.69
1971 2685 5.416083 TCCAACGACCTGAATTATGTACTG 58.584 41.667 0.00 0.00 0.00 2.74
1972 2686 5.421056 TCTCCAACGACCTGAATTATGTACT 59.579 40.000 0.00 0.00 0.00 2.73
2042 2887 5.617252 TCTACTGATTTCAACGTCCCTTTT 58.383 37.500 0.00 0.00 0.00 2.27
2050 2895 3.181540 CGTGCACTCTACTGATTTCAACG 60.182 47.826 16.19 0.00 0.00 4.10
2072 2917 6.032775 CACGCACAGTAACATTTTGATTGATC 59.967 38.462 0.00 0.00 0.00 2.92
2090 2935 3.504273 GCCACACACACACGCACA 61.504 61.111 0.00 0.00 0.00 4.57
2091 2936 3.504273 TGCCACACACACACGCAC 61.504 61.111 0.00 0.00 0.00 5.34
2141 2986 9.002600 GCCAAAAGGATAACAAAAATCAAGATT 57.997 29.630 0.00 0.00 0.00 2.40
2142 2987 8.156165 TGCCAAAAGGATAACAAAAATCAAGAT 58.844 29.630 0.00 0.00 0.00 2.40
2144 2989 7.727331 TGCCAAAAGGATAACAAAAATCAAG 57.273 32.000 0.00 0.00 0.00 3.02
2145 2990 8.511604 TTTGCCAAAAGGATAACAAAAATCAA 57.488 26.923 0.00 0.00 0.00 2.57
2146 2991 8.511604 TTTTGCCAAAAGGATAACAAAAATCA 57.488 26.923 0.00 0.00 34.94 2.57
2147 2992 9.449550 CTTTTTGCCAAAAGGATAACAAAAATC 57.550 29.630 13.81 0.00 43.68 2.17
2148 2993 7.920151 GCTTTTTGCCAAAAGGATAACAAAAAT 59.080 29.630 20.87 0.00 46.36 1.82
2151 2996 6.370433 GCTTTTTGCCAAAAGGATAACAAA 57.630 33.333 20.87 0.00 46.36 2.83
2198 3043 8.289618 ACACATACACATATTTTGTTCTGACAC 58.710 33.333 0.00 0.00 36.00 3.67
2203 3048 7.994425 TGGACACATACACATATTTTGTTCT 57.006 32.000 0.00 0.00 36.00 3.01
2237 3085 8.492415 AATAGAAGAGGCCAATGTATACACTA 57.508 34.615 7.96 1.61 0.00 2.74
2238 3086 7.380423 AATAGAAGAGGCCAATGTATACACT 57.620 36.000 7.96 0.00 0.00 3.55
2239 3087 8.451908 AAAATAGAAGAGGCCAATGTATACAC 57.548 34.615 7.96 0.00 0.00 2.90
2290 3139 8.611051 AGAGGAGGTAATTTTCTTCTAGCTAA 57.389 34.615 0.00 0.00 29.18 3.09
2298 3147 5.011738 TGACGTGAGAGGAGGTAATTTTCTT 59.988 40.000 0.00 0.00 0.00 2.52
2312 3163 6.051717 AGGGAAATAATCAATGACGTGAGAG 58.948 40.000 0.00 0.00 0.00 3.20
2325 3176 7.387397 TGTGCATGAAACAAAAGGGAAATAATC 59.613 33.333 0.00 0.00 0.00 1.75
2362 3213 2.105993 GGTACTGCTCCGGGGATAAAAT 59.894 50.000 4.80 0.00 0.00 1.82
2437 3289 7.539712 AATACTTATTGTGTCGATCAAGGTG 57.460 36.000 10.69 6.48 0.00 4.00
2443 3295 5.233476 TCGGCAAATACTTATTGTGTCGATC 59.767 40.000 12.59 0.00 36.69 3.69
2444 3296 5.113383 TCGGCAAATACTTATTGTGTCGAT 58.887 37.500 12.59 0.00 36.69 3.59
2445 3297 4.496360 TCGGCAAATACTTATTGTGTCGA 58.504 39.130 12.59 12.59 37.87 4.20
2446 3298 4.850859 TCGGCAAATACTTATTGTGTCG 57.149 40.909 9.76 9.76 35.36 4.35
2448 3300 7.497579 TGATGTATCGGCAAATACTTATTGTGT 59.502 33.333 8.61 0.00 33.98 3.72
2449 3301 7.798516 GTGATGTATCGGCAAATACTTATTGTG 59.201 37.037 8.61 0.00 33.98 3.33
2463 3320 1.620819 AGAGGATGGTGATGTATCGGC 59.379 52.381 0.00 0.00 0.00 5.54
2468 3325 3.118261 GGCTGAAAGAGGATGGTGATGTA 60.118 47.826 0.00 0.00 34.07 2.29
2517 3374 2.355310 CCCATGCAGCAAATCCACATTT 60.355 45.455 0.00 0.00 31.91 2.32
2526 3383 3.372730 GCCGTCCCATGCAGCAAA 61.373 61.111 0.00 0.00 0.00 3.68
2562 3419 5.593909 CCCAAGCACAATGAATAGATTGGTA 59.406 40.000 7.41 0.00 37.60 3.25
2571 3428 1.822990 CTCAGCCCAAGCACAATGAAT 59.177 47.619 0.00 0.00 43.56 2.57
2734 3595 8.409371 CACTACAGTACAATGTCATCACTAGAT 58.591 37.037 0.00 0.00 34.56 1.98
2736 3597 7.762382 TCACTACAGTACAATGTCATCACTAG 58.238 38.462 0.00 0.00 34.56 2.57
2854 3722 4.165372 ACTCCCTCCTTACAGAGAGAGTAG 59.835 50.000 4.16 0.00 46.54 2.57
2855 3723 4.113085 ACTCCCTCCTTACAGAGAGAGTA 58.887 47.826 4.16 0.00 46.54 2.59
2856 3724 2.923629 ACTCCCTCCTTACAGAGAGAGT 59.076 50.000 0.42 0.42 44.44 3.24
2857 3725 3.662759 ACTCCCTCCTTACAGAGAGAG 57.337 52.381 0.00 0.00 42.68 3.20
2858 3726 7.235079 CAATATACTCCCTCCTTACAGAGAGA 58.765 42.308 0.00 0.00 35.82 3.10
2861 3729 5.540337 TGCAATATACTCCCTCCTTACAGAG 59.460 44.000 0.00 0.00 0.00 3.35
2863 3731 5.305644 ACTGCAATATACTCCCTCCTTACAG 59.694 44.000 0.00 0.00 0.00 2.74
2864 3732 5.070446 CACTGCAATATACTCCCTCCTTACA 59.930 44.000 0.00 0.00 0.00 2.41
2865 3733 5.511545 CCACTGCAATATACTCCCTCCTTAC 60.512 48.000 0.00 0.00 0.00 2.34
2866 3734 4.593206 CCACTGCAATATACTCCCTCCTTA 59.407 45.833 0.00 0.00 0.00 2.69
2867 3735 3.392616 CCACTGCAATATACTCCCTCCTT 59.607 47.826 0.00 0.00 0.00 3.36
2870 3738 2.551071 GGCCACTGCAATATACTCCCTC 60.551 54.545 0.00 0.00 40.13 4.30
2871 3739 1.421646 GGCCACTGCAATATACTCCCT 59.578 52.381 0.00 0.00 40.13 4.20
2873 3741 2.158755 ACTGGCCACTGCAATATACTCC 60.159 50.000 0.00 0.00 40.13 3.85
2874 3742 2.874701 CACTGGCCACTGCAATATACTC 59.125 50.000 0.00 0.00 40.13 2.59
2875 3743 2.239654 ACACTGGCCACTGCAATATACT 59.760 45.455 0.00 0.00 40.13 2.12
2876 3744 2.643551 ACACTGGCCACTGCAATATAC 58.356 47.619 0.00 0.00 40.13 1.47
2878 3746 1.820519 CAACACTGGCCACTGCAATAT 59.179 47.619 0.00 0.00 40.13 1.28
2880 3748 0.756442 ACAACACTGGCCACTGCAAT 60.756 50.000 0.00 0.00 40.13 3.56
2881 3749 0.969917 AACAACACTGGCCACTGCAA 60.970 50.000 0.00 0.00 40.13 4.08
2882 3750 1.379710 AACAACACTGGCCACTGCA 60.380 52.632 0.00 0.00 40.13 4.41
2884 3752 0.664761 CTGAACAACACTGGCCACTG 59.335 55.000 0.00 5.99 0.00 3.66
2885 3753 0.546122 TCTGAACAACACTGGCCACT 59.454 50.000 0.00 0.00 0.00 4.00
2886 3754 0.947244 CTCTGAACAACACTGGCCAC 59.053 55.000 0.00 0.00 0.00 5.01
2888 3756 1.202698 AGACTCTGAACAACACTGGCC 60.203 52.381 0.00 0.00 0.00 5.36
2889 3757 2.139118 GAGACTCTGAACAACACTGGC 58.861 52.381 0.00 0.00 0.00 4.85
2890 3758 3.742433 AGAGACTCTGAACAACACTGG 57.258 47.619 3.56 0.00 0.00 4.00
2948 3816 6.183360 CCATCACTAGTAGAACTGTAGTGGTC 60.183 46.154 17.81 0.00 36.15 4.02
2987 3861 5.111989 TCGCAATGGAAGCTATATATCTGC 58.888 41.667 0.00 0.00 0.00 4.26
2988 3862 8.877808 TTATCGCAATGGAAGCTATATATCTG 57.122 34.615 0.00 0.00 0.00 2.90
2991 3865 9.836864 TCATTTATCGCAATGGAAGCTATATAT 57.163 29.630 0.00 0.00 35.22 0.86
2992 3866 9.836864 ATCATTTATCGCAATGGAAGCTATATA 57.163 29.630 0.00 0.00 35.22 0.86
3056 3933 2.585247 GCGCCGTGTCCACTATCC 60.585 66.667 0.00 0.00 0.00 2.59
3132 4027 2.187946 CTCGGGGCTGACATGGAC 59.812 66.667 0.00 0.00 0.00 4.02
3162 4057 2.889018 GGCAACTACGGCTACGCC 60.889 66.667 0.00 0.00 46.75 5.68
3303 4198 1.900016 CCAGGAACAGCAGCAGCAA 60.900 57.895 3.17 0.00 45.49 3.91
3563 8356 3.402681 CGATGCAGGACCTGGGGT 61.403 66.667 23.09 0.00 39.44 4.95


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.